HsaINT1026017 @ hg38
Intron Retention
Gene
ENSG00000101104 | PABPC1L
Description
poly(A) binding protein cytoplasmic 1 like [Source:HGNC Symbol;Acc:HGNC:15797]
Coordinates
chr20:44932342-44933185:+
Coord C1 exon
chr20:44932342-44932432
Coord A exon
chr20:44932433-44933071
Coord C2 exon
chr20:44933072-44933185
Length
639 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
ACAAGCTGCCTACCCTCCAGGTG
3' ss Score
6.46
Exon sequences
Seq C1 exon
CCTCCAGCCCAGGCTGCATACTATGGCTGTGGCCCAGTGACACCCACCCAGCCTGCCCCCAGGTGGACATCCCAGCCACCTAGACCTTCCT
Seq A exon
GTGAGTGACCCAGCCCCTTCCACTCTCAGACTGGCCTATTGGTGTGGGCCCCGTGAGGCAGTCATAACACAGGGATGAAACCTGGCTCTGCCACTTCCCAAGGTGGGTGACTTCACTTCTCTGAGCCTCAGTTTCCTCTTCTGAGCATGGGCCTGAATGAGACGTGTGTAAAGTACCAAGCACAGTGGTGAGCCAATGGAAGACACGCAGCTAGCCACCAGCAGTCATCACCAAAGATGCCTCTGATTTGTGACTCTGAAAATTCTTGCAAAGCTGAGAAGGTGAAATTCCTCTGGCTATATTGTTGACCAAAGGCCCTCCTCTGTAAGAGTGAATTGCACGCTCACTTGAAACTATCTTGAGGGACTAAGGTGTACAATCCTGGTGCTTATGCAGTTTGGGGCTCTAGGTAGACACGAGCTGGCTTTGAAATTGTAGATTCCTACACTCCCCCTTTCTGGAGTTCTGGGTCTAAGTGAATTGACTCCTATTTCTGTTGTGAATGTTGTAGTTTCCCTTCCCATTCTCTTGGTGGCCCTGGAAGCTTCTAGGCACAGTGTGCCACCCTGATTATTCCCACCACTCCATCCAACTTTTCTCTCTCTGTGGTGTCTGCACCACAAGCTGCCTACCCTCCAG
Seq C2 exon
GTGCCTCAATGGTCCGGCCACCAGTTGTGCCTCGGCGCCCCCCGGCCCACATCAGCAGTGTCAGGCAGGCCTCCACCCAGGTGCCACGCACGGTGCCTCATACCCAGAGAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101104:ENST00000217073:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=0.992
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCAGGCTGCATACTATGG
R:
TACTCTCTGGGTATGAGGCACC
Band lengths:
198-837
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains